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Myosin VI motor domain in the pps state - from a pi release state crystal, space group P212121 after long soaking with PO4

Analyse Myosin VI motor domain in the pps state - from a pi release state crystal… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4PK4
Type: protein
Length: 758 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Unconventional myosin-VI
UniProt: F1RQI7
Ligands: ADP, MG, PO4
Pockets: 6 · best druggability 0.75

Structure

x-ray diffraction · 1 distinct chain · 48% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Unconventional myosin-VI	protein	758	48% helix, 15% strand	F1RQI7

Ligands and binding sites

ADP · Adenosine-5'-diphosphate · ligand · chains A
MG · Magnesium ion · metal · chains A
PO4 · Phosphate ion · ion · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	868	0.75	0.79	81	empty
2	526	0.73	0.82	61	ADP, MG, PO4
3	165	0.69	0.88	33	empty
4	392	0.68	0.81	38	empty
5	57	0.37	0.79	17	empty

Compared structures

4PK4 · Myosin VI motor domain in the PPS state - from a Pi release state crystal, space group… · the same entry in another collection · chain A against A, TM-score 1.00

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt F1RQI7
Elsewhere: RCSB PDB 4PK4 · PDBe 4PK4 · UniProt F1RQI7

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